wed_overview.Rmd

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title: "Day 3 - Overview"
output: html_document
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# Learning objectives
After this day you will be able to:

1. Generate taxon-specific bioregions using innovative methods based on network connectivity and dissimilarity

2. Assign species to geographic regions using geo-referenced point occurrences

3. Reconstruct species ancestral ranges using the DEC model in R 

4. Infer of area-specific diversification rates, based on State Specific Speciation and Extinction models (SSE)

# Detailed schedule

### Lectures (live)
13:15 - 14:00
- Lecture “Historical biogeography – methods to model the evolution of geographic ranges through time”

14:00 - 14:30
- Lecture "Data driven bioregionalization"

14:30 - 17:00
- Demonstration Bioregionalization
- Demonstration modelling geographic ranges

### Exercises (asynchronous)
1. Taxon-specific bioregionalization: Infomap Bioregions & phyloregion

2. Reconstructing ancestral areas (DEC)

3. Estimating the number of shifts (DEC BSM)

4. Diversification rate estimation (GeoSSE)


# Exercise outcome
A the end of this day, you will have produced the following files for your group of interest, which you will use during the exercises during the next days:

1. .shp and .jpg files of a taxon specific bioregionalization for your group of interest

2. A .txt file with a table assigning species to biogeographic regions in the format necessary to run BioGeoBEARS

3. .rda and .pdf files with the results of the ancestral area reconstruction for your group of interest